Variant report

Variant	rs1857060
Chromosome Location	chr10:93446072-93446073
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:93444232..93446401-chr10:93448282..93451081,3	K562	blood:
2	chr10:93444389..93447006-chr10:93448004..93451081,3	K562	blood:
3	chr10:93444797..93447256-chr10:93449806..93452574,3	MCF-7	breast:
4	chr10:93411652..93413648-chr10:93444195..93446402,2	MCF-7	breast:
5	chr10:93439340..93443358-chr10:93444027..93446342,3	MCF-7	breast:
6	chr10:93440121..93442029-chr10:93445363..93447595,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10509634	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10748566	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10786012	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10786014	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10881951	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10881958	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10881960	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10881966	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881967	0.92[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10881971	0.87[MEX][hapmap]
rs11186660	0.98[ASN][1000 genomes]
rs11186664	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11186665	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11186667	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11186668	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1341263	0.92[CEU][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs1418160	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1418162	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1592050	1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1856927	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1935029	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2050913	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2066275	0.87[MEX][hapmap]
rs2153654	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2421692	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2901505	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3758499	0.87[MEX][hapmap]
rs4244929	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4933219	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61876144	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7897499	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7918686	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895892	chr10:93432632-93470167	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1857060	TNKS2	cis	cerebellum	SCAN
rs1857060	TNKS2	cis	Esophagus Muscularis	GTEx
rs1857060	TNKS2	cis	Nerve Tibial	GTEx
rs1857060	TNKS2	cis	Skin Sun Exposed Lower leg	GTEx
rs1857060	BTAF1	cis	cerebellum	SCAN
rs1857060	TNKS2-AS1	cis	Heart Left Ventricle	GTEx
rs1857060	TNKS2	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93424800-93449800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:93427600-93448800	Weak transcription	Liver	Liver
3	chr10:93439400-93449600	Weak transcription	Aorta	Aorta
4	chr10:93441600-93449800	Weak transcription	HSMMtube	muscle
5	chr10:93442000-93449800	Weak transcription	Fetal Brain Male	brain
6	chr10:93442400-93446400	Weak transcription	Brain Anterior Caudate	brain
7	chr10:93442400-93449800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr10:93444000-93449400	Weak transcription	HSMM	muscle
9	chr10:93444200-93449000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr10:93444400-93449600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr10:93444400-93449800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:93444600-93447200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr10:93444600-93448800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:93444600-93449600	Weak transcription	Osteobl	bone
15	chr10:93445000-93447600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr10:93445000-93447600	Weak transcription	HMEC	breast
17	chr10:93445000-93449400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr10:93445000-93449600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:93445000-93449600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:93445000-93449600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr10:93445000-93449600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr10:93445000-93449600	Weak transcription	NHDF-Ad	bronchial
23	chr10:93445000-93449600	Weak transcription	NHLF	lung
24	chr10:93445400-93447200	Weak transcription	NHEK	skin
25	chr10:93445400-93447400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr10:93445600-93446600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links